DNAAF3 — 540 ClinVar variants

All ClinVar germline DNAAF3 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 213 flagged for review →

28 Pathogenic · 6 Pathogenic/Likely pathogenic · 16 Likely pathogenic · 23 Conflicting · 17 Benign · 23 Benign/Likely benign · 183 Likely benign · 244 Uncertain significance

Full DNAAF3 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 213

Variants where the independent computational evidence doesn't line up with the clinical picture — a QC signal for a second look, not a reclassification.

Predictors vs ClinVar 3

ClinVar calls these pathogenic, but the computational predictors lean tolerated — the highest-value review flag.

Predictors agree, ClinVar conflicts 12

ClinVar submitters conflict, but the independent predictors unanimously agree — a QC review flag, not a reclassification.

Predictors lean, ClinVar uncertain 89

ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.

Predictors split 109

The independent predictors disagree with each other — read with care.

All DNAAF3 variants

Pathogenic 28

  • p.Arg89Ter Multiple submitters primary ciliary dyskinesia
  • p.Trp117Ter Multiple submitters primary ciliary dyskinesia 2
  • c.1238+1G>A Single submitter primary ciliary dyskinesia
  • c.480+2_480+9del Single submitter primary ciliary dyskinesia
  • c.85+2T>G Single submitter primary ciliary dyskinesia
  • c.86-61_86-52del Single submitter primary ciliary dyskinesia
  • c.86-6del Single submitter primary ciliary dyskinesia
  • c.-14G>A Single submitter primary ciliary dyskinesia
  • c.-5+6G>A Single submitter primary ciliary dyskinesia
  • c.-5+7dup Single submitter primary ciliary dyskinesia
  • p.Arg379Ter Single submitter primary ciliary dyskinesia
  • p.Asp291fs Single submitter
  • p.Gln150Ter Single submitter primary ciliary dyskinesia
  • p.Gln26Ter Single submitter primary ciliary dyskinesia 2
  • p.Gln420fs Single submitter primary ciliary dyskinesia
  • p.Leu122fs Single submitter primary ciliary dyskinesia
  • p.Leu370fs Single submitter primary ciliary dyskinesia
  • p.Leu61Pro Single submitter primary ciliary dyskinesia 2
  • p.Phe285_Ala289del Single submitter primary ciliary dyskinesia
  • p.Pro21fs Single submitter primary ciliary dyskinesia
  • p.Ser15fs Single submitter primary ciliary dyskinesia
  • p.Ser200fs Single submitter primary ciliary dyskinesia
  • p.Ser54fs Single submitter primary ciliary dyskinesia
  • p.Trp153Ter Single submitter primary ciliary dyskinesia
  • p.Trp17Ter Single submitter primary ciliary dyskinesia
  • p.Trp211Ter Single submitter primary ciliary dyskinesia
  • p.Val321fs Single submitter primary ciliary dyskinesia
  • p.Val208fs No assertion criteria primary ciliary dyskinesia 2

Pathogenic/Likely pathogenic 6

Likely pathogenic 16

  • c.789+1G>C Multiple submitters primary ciliary dyskinesia
  • c.1044_1048+13del Single submitter primary ciliary dyskinesia
  • c.228+5G>C Single submitter primary ciliary dyskinesia
  • c.86-64G>A Single submitter primary ciliary dyskinesia
  • c.-4-1G>A Single submitter primary ciliary dyskinesia
  • p.Ala204fs Single submitter primary ciliary dyskinesia 2
  • p.Ala351Ser Single submitter primary ciliary dyskinesia ⚠
  • p.Ala351Thr Single submitter primary ciliary dyskinesia ⚠
  • p.Arg66Ter Single submitter primary ciliary dyskinesia 2
  • p.Phe285Ser Single submitter primary ciliary dyskinesia
  • p.Pro281Arg Single submitter primary ciliary dyskinesia
  • p.Pro281Leu Single submitter primary ciliary dyskinesia
  • p.Ser8Ter Single submitter primary ciliary dyskinesia 2
  • p.Val126fs Single submitter primary ciliary dyskinesia 2
  • p.Glu111Lys No assertion criteria hypertrophic cardiomyopathy 4 ⚠
  • p.His59fs No assertion criteria primary ciliary dyskinesia

Conflicting classifications of pathogenicity 23

  • c.1041_1048+1del Single submitter primary ciliary dyskinesia 2
  • c.1049-3C>T Single submitter primary ciliary dyskinesia
  • c.323-4del Single submitter primary ciliary dyskinesia
  • c.86-60A>C Single submitter primary ciliary dyskinesia
  • p.Ala278Thr Single submitter primary ciliary dyskinesia ⚠
  • p.Arg419Gln Single submitter primary ciliary dyskinesia ⚠
  • p.Arg419Trp Single submitter primary ciliary dyskinesia ⚠
  • p.Asp235Glu Single submitter primary ciliary dyskinesia ⚠
  • p.Asp320Glu Single submitter primary ciliary dyskinesia ⚠
  • p.Asp417= Single submitter primary ciliary dyskinesia
  • p.Glu459Asp Single submitter primary ciliary dyskinesia ⚠
  • p.Gly472Arg Single submitter primary ciliary dyskinesia ⚠
  • p.Gly8= Single submitter primary ciliary dyskinesia 2
  • p.Pro185Ser Single submitter primary ciliary dyskinesia ⚠
  • p.Pro45Ser Single submitter primary ciliary dyskinesia ⚠
  • p.Pro474Leu Single submitter primary ciliary dyskinesia ⚠
  • p.Pro530Leu Single submitter primary ciliary dyskinesia 2 ⚠
  • p.Thr330= Single submitter Familial Hypertrophic Cardiomyopathy with Wolff-Parkinson-White Syndrome
  • p.Thr330Ala Single submitter primary ciliary dyskinesia ⚠
  • p.Val359Ile Single submitter primary ciliary dyskinesia ⚠
  • p.Val416= Single submitter Familial Hypertrophic Cardiomyopathy with Wolff-Parkinson-White Syndrome
  • p.Val418Met Single submitter primary ciliary dyskinesia ⚠
  • p.Val55fs Single submitter primary ciliary dyskinesia

Benign 17

Benign/Likely benign 23

  • c.1163+10G>T Multiple submitters primary ciliary dyskinesia
  • c.1164-14C>T Multiple submitters primary ciliary dyskinesia
  • c.1239-8A>G Multiple submitters primary ciliary dyskinesia 2
  • c.323-17T>G Multiple submitters primary ciliary dyskinesia
  • c.790-14C>T Multiple submitters primary ciliary dyskinesia
  • c.913-13C>T Multiple submitters primary ciliary dyskinesia
  • c.-15G>C Multiple submitters primary ciliary dyskinesia
  • c.-44C>T Multiple submitters
  • c.-4G>A Multiple submitters primary ciliary dyskinesia
  • c.-59C>T Multiple submitters primary ciliary dyskinesia
  • p.Ala222= Multiple submitters primary ciliary dyskinesia 2
  • p.Arg109= Multiple submitters primary ciliary dyskinesia
  • p.Asn365= Multiple submitters primary ciliary dyskinesia
  • p.Cys375Tyr Multiple submitters primary ciliary dyskinesia
  • p.Glu292Gly Multiple submitters primary ciliary dyskinesia ⚠
  • p.Gly177= Multiple submitters primary ciliary dyskinesia
  • p.Gly177Ser Multiple submitters primary ciliary dyskinesia
  • p.Leu334Pro Multiple submitters primary ciliary dyskinesia
  • p.Pro352= Multiple submitters primary ciliary dyskinesia
  • p.Thr2= Multiple submitters primary ciliary dyskinesia
  • p.Thr330Ile Multiple submitters primary ciliary dyskinesia 2 ⚠
  • p.Val170= Multiple submitters primary ciliary dyskinesia
  • p.Val469Met Multiple submitters primary ciliary dyskinesia ⚠

Likely benign 183

  • c.480+9G>T Multiple submitters primary ciliary dyskinesia 2
  • c.664-9C>T Multiple submitters primary ciliary dyskinesia
  • c.913-8A>G Multiple submitters primary ciliary dyskinesia
  • c.-65G>C Multiple submitters primary ciliary dyskinesia
  • p.Ala134= Multiple submitters primary ciliary dyskinesia
  • p.Ala306= Multiple submitters primary ciliary dyskinesia
  • p.Ala489= Multiple submitters primary ciliary dyskinesia
  • p.Arg234= Multiple submitters primary ciliary dyskinesia
  • p.Asn119= Multiple submitters primary ciliary dyskinesia
  • p.Asp477= Multiple submitters primary ciliary dyskinesia
  • p.Glu459= Multiple submitters primary ciliary dyskinesia
  • p.Gly118= Multiple submitters primary ciliary dyskinesia
  • p.Gly300= Multiple submitters primary ciliary dyskinesia
  • p.Gly526= Multiple submitters primary ciliary dyskinesia
  • p.His249= Multiple submitters primary ciliary dyskinesia
  • p.His312= Multiple submitters primary ciliary dyskinesia
  • p.Leu60= Multiple submitters primary ciliary dyskinesia
  • p.Phe451= Multiple submitters primary ciliary dyskinesia
  • p.Pro142= Multiple submitters primary ciliary dyskinesia
  • p.Pro363= Multiple submitters primary ciliary dyskinesia
  • p.Pro471= Multiple submitters primary ciliary dyskinesia
  • p.Pro474= Multiple submitters primary ciliary dyskinesia
  • p.Ser54= Multiple submitters primary ciliary dyskinesia
  • p.Ser95Asn Multiple submitters primary ciliary dyskinesia ⚠
  • p.Thr236= Multiple submitters primary ciliary dyskinesia
  • p.Thr279= Multiple submitters primary ciliary dyskinesia 2
  • p.Thr297= Multiple submitters primary ciliary dyskinesia
  • p.Thr315= Multiple submitters primary ciliary dyskinesia
  • p.Thr63= Multiple submitters primary ciliary dyskinesia
  • p.Val409= Multiple submitters primary ciliary dyskinesia
  • c.1048+12ACA[2] Single submitter primary ciliary dyskinesia
  • c.1048+14_1048+15delinsTC Single submitter primary ciliary dyskinesia
  • c.1048+202_1048+206dup Single submitter
  • c.1049-1G>A Single submitter primary ciliary dyskinesia
  • c.1163+7G>A Single submitter primary ciliary dyskinesia
  • c.1163+7G>C Single submitter primary ciliary dyskinesia
  • c.1163+8G>A Single submitter primary ciliary dyskinesia
  • c.1164-10C>G Single submitter primary ciliary dyskinesia
  • c.1164-15C>T Single submitter
  • c.1164-18C>A Single submitter primary ciliary dyskinesia
  • c.1164-20G>A Single submitter primary ciliary dyskinesia
  • c.1164-5T>C Single submitter primary ciliary dyskinesia
  • c.1164-8C>T Single submitter primary ciliary dyskinesia
  • c.1238+14G>A Single submitter primary ciliary dyskinesia
  • c.1238+20G>A Single submitter primary ciliary dyskinesia
  • c.1238+9G>T Single submitter primary ciliary dyskinesia
  • c.1239-15G>A Single submitter primary ciliary dyskinesia
  • c.1239-16C>T Single submitter primary ciliary dyskinesia
  • c.1239-9_1239-8inv Single submitter primary ciliary dyskinesia
  • c.228+10G>A Single submitter primary ciliary dyskinesia
  • c.229-6T>C Single submitter primary ciliary dyskinesia
  • c.322+13_322+16del Single submitter primary ciliary dyskinesia
  • c.322+13G>A Single submitter primary ciliary dyskinesia
  • c.322+16C>A Single submitter primary ciliary dyskinesia
  • c.322+17C>T Single submitter primary ciliary dyskinesia
  • c.323-11TC[2] Single submitter primary ciliary dyskinesia
  • c.323-14C>A Single submitter primary ciliary dyskinesia
  • c.323-14C>T Single submitter primary ciliary dyskinesia
  • c.323-4G>A Single submitter primary ciliary dyskinesia
  • c.323-5C>T Single submitter
  • c.323-5dup Single submitter primary ciliary dyskinesia
  • c.323-6C>T Single submitter primary ciliary dyskinesia
  • c.480+14G>A Single submitter primary ciliary dyskinesia
  • c.481-19C>T Single submitter primary ciliary dyskinesia
  • c.481-4G>A Single submitter primary ciliary dyskinesia
  • c.481-5C>T Single submitter primary ciliary dyskinesia
  • c.481-8C>A Single submitter primary ciliary dyskinesia
  • c.663+11C>G Single submitter primary ciliary dyskinesia
  • c.663+20G>A Single submitter primary ciliary dyskinesia
  • c.663+9C>T Single submitter primary ciliary dyskinesia
  • c.664-13C>T Single submitter primary ciliary dyskinesia
  • c.664-17C>G Single submitter primary ciliary dyskinesia
  • c.664-4C>A Single submitter primary ciliary dyskinesia
  • c.664-8C>A Single submitter primary ciliary dyskinesia
  • c.664-8C>T Single submitter primary ciliary dyskinesia
  • c.789+15C>T Single submitter primary ciliary dyskinesia
  • c.790-12C>A Single submitter primary ciliary dyskinesia
  • c.790-18C>G Single submitter primary ciliary dyskinesia
  • c.790-9C>T Single submitter primary ciliary dyskinesia
  • c.85+10A>C Single submitter primary ciliary dyskinesia
  • c.85+17A>G Single submitter primary ciliary dyskinesia
  • c.85+20G>A Single submitter primary ciliary dyskinesia
  • c.86-14T>G Single submitter primary ciliary dyskinesia
  • c.86-62G>A Single submitter primary ciliary dyskinesia
  • c.86-68dup Single submitter primary ciliary dyskinesia
  • c.86-68T>C Single submitter primary ciliary dyskinesia
  • c.86-70T>G Single submitter primary ciliary dyskinesia
  • c.912+10G>A Single submitter primary ciliary dyskinesia
  • c.912+13del Single submitter primary ciliary dyskinesia
  • c.912+13G>C Single submitter primary ciliary dyskinesia
  • c.912+20C>G Single submitter primary ciliary dyskinesia
  • c.912+7G>A Single submitter primary ciliary dyskinesia
  • c.913-16C>G Single submitter primary ciliary dyskinesia
  • c.913-64A>C Single submitter
  • c.913-9T>C Single submitter primary ciliary dyskinesia
  • c.-38G>A Single submitter primary ciliary dyskinesia
  • c.-4-11C>G Single submitter primary ciliary dyskinesia
  • c.-41A>G Single submitter primary ciliary dyskinesia
  • c.-47G>A Single submitter primary ciliary dyskinesia
  • c.-62C>A Single submitter primary ciliary dyskinesia
  • c.-68G>C Single submitter primary ciliary dyskinesia
  • c.-92T>G Single submitter
  • p.Ala127= Single submitter primary ciliary dyskinesia
  • p.Ala128= Single submitter primary ciliary dyskinesia
  • p.Ala166= Single submitter primary ciliary dyskinesia
  • p.Ala204= Single submitter
  • p.Ala247= Single submitter primary ciliary dyskinesia
  • p.Ala284= Single submitter primary ciliary dyskinesia
  • p.Ala38= Single submitter primary ciliary dyskinesia
  • p.Ala402= Single submitter primary ciliary dyskinesia
  • p.Ala67= Single submitter primary ciliary dyskinesia
  • p.Ala97= Single submitter primary ciliary dyskinesia
  • p.Arg157= Single submitter primary ciliary dyskinesia
  • p.Arg206= Single submitter primary ciliary dyskinesia
  • p.Arg220= Single submitter primary ciliary dyskinesia
  • p.Arg419= Single submitter primary ciliary dyskinesia
  • p.Arg58= Single submitter primary ciliary dyskinesia
  • p.Arg66= Single submitter primary ciliary dyskinesia
  • p.Arg72= Single submitter primary ciliary dyskinesia
  • p.Asn299= Single submitter primary ciliary dyskinesia
  • p.Asn377= Single submitter primary ciliary dyskinesia
  • p.Asn377Lys Single submitter primary ciliary dyskinesia
  • p.Asn82= Single submitter primary ciliary dyskinesia
  • p.Asp145= Single submitter primary ciliary dyskinesia
  • p.Asp203= Single submitter primary ciliary dyskinesia
  • p.Asp24= Single submitter primary ciliary dyskinesia
  • p.Asp291= Single submitter primary ciliary dyskinesia
  • p.Asp333= Single submitter primary ciliary dyskinesia
  • p.Asp333Glu Single submitter primary ciliary dyskinesia
  • p.Asp39= Single submitter primary ciliary dyskinesia
  • p.Gln498= Single submitter primary ciliary dyskinesia
  • p.Glu111= Single submitter primary ciliary dyskinesia
  • p.Glu491= Single submitter primary ciliary dyskinesia
  • p.Glu512= Single submitter primary ciliary dyskinesia
  • p.Glu81= Single submitter primary ciliary dyskinesia
  • p.Gly18= Single submitter primary ciliary dyskinesia
  • p.Gly307= Single submitter primary ciliary dyskinesia
  • p.Gly463= Single submitter primary ciliary dyskinesia
  • p.Gly53= Single submitter primary ciliary dyskinesia
  • p.His503= Single submitter primary ciliary dyskinesia
  • p.His59= Single submitter primary ciliary dyskinesia
  • p.Ile309= Single submitter primary ciliary dyskinesia
  • p.Ile394= Single submitter primary ciliary dyskinesia
  • p.Leu114= Single submitter primary ciliary dyskinesia
  • p.Leu121= Single submitter primary ciliary dyskinesia
  • p.Leu154= Single submitter primary ciliary dyskinesia
  • p.Leu194= Single submitter primary ciliary dyskinesia
  • p.Leu198= Single submitter primary ciliary dyskinesia
  • p.Leu217= Single submitter primary ciliary dyskinesia
  • p.Leu261= Single submitter primary ciliary dyskinesia
  • p.Leu317= Single submitter primary ciliary dyskinesia
  • p.Leu362= Single submitter primary ciliary dyskinesia
  • p.Leu407= Single submitter primary ciliary dyskinesia
  • p.Leu483Pro Single submitter primary ciliary dyskinesia
  • p.Leu497= Single submitter primary ciliary dyskinesia
  • p.Leu84= Single submitter primary ciliary dyskinesia
  • p.Lys456= Single submitter primary ciliary dyskinesia
  • p.Phe285= Single submitter primary ciliary dyskinesia
  • p.Phe361= Single submitter primary ciliary dyskinesia
  • p.Pro101= Single submitter primary ciliary dyskinesia
  • p.Pro101= Single submitter primary ciliary dyskinesia
  • p.Pro124= Single submitter primary ciliary dyskinesia
  • p.Pro144= Single submitter primary ciliary dyskinesia
  • p.Pro227= Single submitter primary ciliary dyskinesia
  • p.Pro344= Single submitter primary ciliary dyskinesia
  • p.Pro354= Single submitter
  • p.Pro395= Single submitter
  • p.Pro403= Single submitter primary ciliary dyskinesia
  • p.Pro530= Single submitter primary ciliary dyskinesia
  • p.Ser192= Single submitter primary ciliary dyskinesia
  • p.Ser257= Single submitter primary ciliary dyskinesia
  • p.Ser460= Single submitter primary ciliary dyskinesia
  • p.Ser535= Single submitter primary ciliary dyskinesia
  • p.Thr297= Single submitter primary ciliary dyskinesia
  • p.Thr3= Single submitter primary ciliary dyskinesia
  • p.Thr358= Single submitter primary ciliary dyskinesia
  • p.Thr428= Single submitter primary ciliary dyskinesia
  • p.Thr443= Single submitter primary ciliary dyskinesia
  • p.Thr465= Single submitter primary ciliary dyskinesia
  • p.Tyr273= Single submitter primary ciliary dyskinesia
  • p.Val126= Single submitter primary ciliary dyskinesia
  • p.Val385= Single submitter primary ciliary dyskinesia
  • p.Val41= Single submitter primary ciliary dyskinesia

Uncertain significance 244